An embedded and charset-unspecified text was scrubbed... Name: not available Url: https://stat.ethz.ch/pipermail/bioconductor/attachments/20070628/ 14477e3d/attachment.pl

Hi Ingrid, Please try the latest version of lumi (version 1.3.13), which can be downloaded from Bioconductor developing website: http://www.bioconductor.org/packages/2.1/bioc/html/lumi.html Tell me if the problem still exists. Thanks! Pan Message: 17 Date: Thu, 28 Jun 2007 10:47:46 +0200 From: Ingrid H. G. ?stensen <ingrid.h.g.ostensen@rr-research.no> Subject: [BioC] lumi error? To: <bioconductor at="" stat.math.ethz.ch=""> Message-ID: <afe5b2464f1eb547bbace62cce8e40200b8102 at="" mr3k6001.ad.medicalresearch.no=""> Content-Type: text/plain Hi I am using the lumi package to analyze our Illumina data and I have used human version 2 and BeadStudio version 2 to extract data to use in R/Bioconductor. This has worked fine. But now I have used human version 1 and BeadStudio version 3 and I get the following error message when I try to read the data into R: > dataSet <- lumiR(dataFil) Error in var(x, na.rm = na.rm) : 'x' is empty In addition: Warning messages: 1: NAs introduced by coercion 2: NAs introduced by coercion 3: NAs introduced by coercion 4: no non-missing arguments to max; returning ?Inf > sessionInfo() R version 2.5.0 (2007-04-23) i386-pc-mingw32 locale: LC_COLLATE=Norwegian (Bokm?l)_Norway.1252;LC_CTYPE=Norwegian (Bokm?l)_Norway.1252;LC_MONETARY=Norwegian (Bokm?l)_Norway.1252;LC_NUMERIC=C;LC_TIME=Norwegian (Bokm?l)_Norway.1252 attached base packages: [1] "splines" "tools" "stats" "graphics" "grDevices" "utils" "datasets" "methods" [9] "base" other attached packages: annaffy GOstats Category Matrix lattice genefilter "1.8.1" "2.2.1" "2.2.2" "0.99875-2" "0.15-11" "1.14.1" survival KEGG RBGL GO graph illuminaHumanv1 "2.32" "1.16.0" "1.12.0" "1.16.0" "1.14.2" "1.2.0" xtable RColorBrewer limma lumi annotate mgcv "1.4-6" "0.2-3" "2.10.0" "1.2.0" "1.14.1" "1.3-25" affy affyio Biobase "1.14.0" "1.4.0" "1.14.0" Does anyone have any idea what might be wrong? Regards, Ingrid

An embedded and charset-unspecified text was scrubbed... Name: not available Url: https://stat.ethz.ch/pipermail/bioconductor/attachments/20070629/ 1e44072c/attachment.pl